Journal Papers

46 - Chow, B. Y. and Boyden, E. S. (2013) Optogenetics and Translational Medicine, Science Translational Medicine 5(177):177ps5.

45 - Alivisatos, A., Andrews, A., Boyden, E. S., Chun, M., Church, G., Deisseroth, K., Donoghue, J., Fraser, S., Lippincott-Schwartz, J., Looger, L., Masmanidis, S., McEuen, P., Nurmikko, A., Park, H., Peterka, D., Reid, C., Roukes, M., Scherer, A., Schnitzer, M., Sejnowski, T., Shepard, K., Tsao, D., Turrigiano, G., Weiss, P., Xu, C., Yuste, R., Zhuang, X. (2013) Nanotools for Neuroscience and Brain Activity Mapping, ACS Nano, DOI: 10.1021/nn4012847.

44 - Cavanaugh, J., Monosov, I. E., McAlonan, K., Berman, R. A., Smith, M. K., Cao, V., Wang, K. H., Boyden, E. S., Wurtz, R. H. (2012) Optogenetic Inactivation Modifies Monkey Visuomotor Behavior, Neuron 76:901–907.

43 - Gurkan, U. A., Fan, Y., Xu, F., Erkmen, B., Urkac, E. S., Parlakgul, G., Bernstein, J., Xing, W.*, Boyden, E. S.*, Demirci, U.* (2013) Simple precision creation of digitally specified, spatially heterogeneous, engineered tissue architectures, Advanced Materials 25(8):1192-1198. (* co-corresponding authors)

42 - Zorzos, A. N., Scholvin, J., Boyden, E. S.*, Fonstad, C. G. (2012) Three-dimensional multiwaveguide probe array for light delivery to distributed brain circuits, Optics Letters 37(23):4841-4843. (* corresponding author)

41 - Boyden, E. S. (2013) Interview with Edward S. Boyden, Trends in Neurosciences 36(1):1-2.

40 - Zamft, B. M.*, Marblestone, A. H.*, Kording, K., Schmidt, D., Martin-Alarcon, D., Tyo, K., Boyden, E. S., Church, G. (2012) Measuring Cation Dependent DNA Polymerase Fidelity Landscapes by Deep Sequencing, PLoS ONE 7(8): e43876. (* co-first authors)

39 - Lee, S.-H., Kwan, A. C., Zhang, S., Phoumthipphavong, V., Flannery, J. G., Masmanidis, S. C., Taniguchi, H., Huang, Z. J., Zhang, F., Boyden, E. S., Deisseroth, K., Dan, Y. (2012) Activation of specific interneurons improves V1 feature selectivity and visual perception, Nature 488(7411):379-8.

38 - Gerits, A., Farivar, R., Rosen, B. R., Wald, L. L., Boyden, E. S., Vanduffel, W. (2012) Optogenetically Induced Behavioral and Functional Network Changes in Primates, Current Biology 22(18):1722-6.

37 - Karayiorgou M., Flint J., Gogos J.A., Malenka R.C.; the Genetic and Neural Complexity in Psychiatry 2011 Working Group (Bargmann C.I., Boyden E.S., Bullmore E.T., Chan A.W., Davis M., Deisseroth K., Dolmetch R.E., Eggan K., Fears S.C., Freimer N.B., Geschwind D.H., Gordon J., Nickerson D.A., Vanderhaeghen P., Axel R., Zuker C.S., Fischbach G.) (2012) The best of times, the worst of times for psychiatric disease, Nature Neuroscience 15(6):811-812.

36 - Kodandaramaiah, S., Talei Franzesi, G., Chow, B., Boyden, E. S.*, Forest, C.* (2012) Automated whole-cell patch clamp electrophysiology of neurons in vivo, Nature Methods 9:585–587. (* co-corresponding authors)

35 - Kim K.M., Baratta M.V., Yang A., Lee D., Boyden E.S.*, Fiorillo C.D.* (2012) Optogenetic mimicry of the transient activation of dopamine neurons by natural reward is sufficient for operant reinforcement, PLoS One 7(4):e33612. (* co-corresponding authors)

34 - Madisen, L., Mao, T., Koch, H., Zhuo, J.-m., Berenyi, A., Fujisawa, S., Hsu, Y.-W., Garcia, A. J., Gu, X., Zanella, S., Kidney, J., Gu, H., Mao, Y., Hooks, B. M., Boyden, E. S., Buzsáki, G., Ramirez, J. M., Jones, A. R., Svoboda, K., Han, X., Turner, E. E., Zeng, H. (2012) A toolbox of Cre-dependent optogenetic transgenic mice for light-induced activation and silencing, Nature Neuroscience 15(5):793-802.

33 - Chow B.Y., Han, X., Boyden, E. S. (2012) Genetically encoded molecular tools for light-driven silencing of targeted neurons, Progress in Brain Research 196:49-61.

32 - Knopfel, T., Boyden, E. S. (2012) Tools for observing and controlling specific molecular or physiological pathways in intact cells and tissues. Preface, Progress in Brain Research 196:vii–viii.

31 - Börgers C., Talei Franzesi G., LeBeau F. E. N. , Boyden E. S., Kopell N.J. (2012) Minimal Size of Cell Assemblies Coordinated by Gamma Oscillations, PLoS Computational Biology 8(2):e1002362.

30 - Bernstein, J. G., Boyden, E. S. (2011) Optogenetic tools for analyzing the neural circuits of behavior, Trends in Cognitive Sciences 15(12):592-600.

29 - Kleinlogel, S., Terpitz, U., Legrum, B., Gokbuget, D., Boyden, E. S., Bamann, C., Wood, P. G., Bamberg, E. (2011) A gene-fusion strategy for stoichiometric and co-localized expression of light-gated membrane proteins, Nature Methods 8(12):1083-1088.

28 - Bernstein, J. G., Garrity, P. A.*, Boyden, E. S.* (2012) Optogenetics and thermogenetics: technologies for controlling the activity of targeted cells within intact neural circuits, Current Opinion in Neurobiology 22(1):61-71. (* co-corresponding authors)

27 - Kahn, I. * Desai, M., Knoblich, U., Bernstein, J., Henninger, M., Graybiel, A. M., Boyden, E. S.*, Buckner, R. L. *, Moore, C. I. * (2011) Characterization of the Functional MRI Response Temporal Linearity via Optical Control of Neocortical Pyramidal Neurons, Journal of Neuroscience 31(42):15086-15091. (* co-corresponding authors)

26 - Tsunematsu, T., Kilduff, T., Boyden, E. S., Takahashi, S., Tominaga, M., Yamanaka, A. (2011) Acute optogenetic silencing of orexin/hypocretin neurons induces slow wave sleep in mice, Journal of Neuroscience 31(29): 10529-10539.

25 - Joo, J., Chow, B. Y., Prakash, M., Boyden, E. S., Jacobson, J. M. (2011) Face-selective electrostatic control of hydrothermal zinc oxide nanowire synthesis, Nature Materials 10(8):596-601.

24 - Wentz, C. T., Bernstein, J. G., Monahan, P., Guerra, A., Rodriguez, A., Boyden, E. S. (2011) A Wirelessly Powered and Controlled Device for Optical Neural Control of Freely-Behaving Animals, Journal of Neural Engineering 8(4):046021.

23 - Chow, B. Y. and Boyden, E. S. (2011) Synthetic Physiology, Science 332(6037):1508-1509.

22 - McCarthy, M. M., Moore-Kochlacs, C., Xuan Gu, T., Boyden, E. S., Han, X., Kopell, N. J. (2011) Striatal origin of the pathologic beta oscillations in Parkinson’s disease, Proceedings of the National Academy of Sciences 108(28):11620-5.

21 - Chow, B. Y.*, Chuong, A. S. *, Klapoetke, N. C. *, Boyden, E. S. (2011) Synthetic Physiology: Strategies for Adapting Tools from Nature for Genetically-Targeted Control of Fast Biological Processes, Methods in Enzymology 497:425-43. (* co-first authors)

20 - Boyden, E.S. (2011) A history of optogenetics: the development of tools for controlling brain circuits with light, F1000 Biology Reports 3:11.

19 - Doroudchi, M. M., Greenberg, K. P., Liu, J., Silka, K. A., Boyden, E. S., Lockridge, J. A., Arman, A. C., Janani, R., Boye, S. E., Boye, S. L., Gordon, G. M., Matteo, B. C., Sampath, A. P., Hauswirth, W. W., Horsager, A. (2011) Virally delivered Channelrhodopsin-2 Safely and Effectively Restores Visual Function in Multiple Mouse Models of Blindness, Molecular Therapy 19(7):1220-9.

18 - Han, X.*, Chow, B. Y.*, Zhou, H., Klapoetke, N. C., Chuong, A., Rajimehr, R., Yang, A., Baratta, M. V., Winkle, J., Desimone, R., Boyden, E. S. (2011) A high-light sensitivity optical neural silencer: development and application to optogenetic control of non-human primate cortex, Frontiers in Systems Neuroscience 5:18. (* co-first authors)

17 - Desai M., Kahn I., Knoblich U., Bernstein J., Atallah H., Yang A., Kopell, N., Buckner R.L., Graybiel A. M., Moore C. I.*, and Boyden E. S.* (2011) Mapping Brain Networks in Awake Mice Using Combined Optical Neural Control and fMRI, Journal of Neurophysiology 105(3):1393-405. (* co-corresponding authors)

16 - Zorzos, A. N., Boyden, E. S.*, and Fonstad, C. G. (2010) Multiwaveguide implantable probe for light delivery to sets of distributed brain targets, Optics Letters 35(24):4133-5. (* corresponding author)

15 - Knopfel, T., Lin, M. Z., Levskaya, A., Tian, L., Lin, J. Y., Boyden, E. S. (2010) Toward the Second Generation of Optogenetic Tools, Journal of Neuroscience 30(45):14998-15004.

14 - Chan, S. Y., Bernstein, J. G., Boyden, E. S. (2010) Scalable Fluidic Injector Arrays for Viral Targeting of Intact 3-D Brain Circuits, Journal of Visualized Experiments 35:1489.

13 - Chow, B. Y.*, Han, X.*, Dobry, A. S., Qian, X., Chuong, A. S., Li, M., Henninger, M. A., Belfort, G. M., Lin, Y., Monahan, P. E., Boyden, E. S. (2010) High-performance genetically targetable optical neural silencing by light- driven proton pumps, Nature 463:98-102. (* co-first authors)

12 - Han X., Qian X., Stern P., Chuong A. and Boyden E.S. (2009) Informational Lesions: Optical Perturbation of Spike Timing and Neural Synchrony Via Microbial Opsin Gene Fusions, Frontiers in Molecular Neuroscience 2:12.

11 - Han, X.*, Qian, X., Bernstein, J.G., Zhou, H.-H., Talei Franzesi, G., Stern, P., Bronson, R.T., Graybiel, A.M., Desimone, R., and Boyden, E.S.* (2009) Millisecond-Timescale Optical Control of Neural Dynamics in the Nonhuman Primate Brain, Neuron 62(2): 191-198. (* co-corresponding authors)

10 - Liao, Y. J., Safa, P., Chen, Y.-R., Sobel, R. A., Boyden, E. S., Tsien, R. W. (2008) Anti-Ca2+ channel antibody attenuates Ca2+ currents and mimics cerebellar ataxia in vivo, Proceedings of the National Academy of Sciences 105(7):2705-2710.

9 - Wang, H., Peca, J., Matsusaki, M., Matsusaki, K., Noguchi, J., Qiu, L., Wang, D., Zhang, F., Boyden, E. S., Deisseroth, K., Kasai, H., Hall, W. C., Feng, G., Augustine, G. J. (2007) High-speed mapping of synaptic connectivity using photostimulation in channelrhodopsin-2 transgenic mice, Proceedings of the National Academy of Sciences 104(19):8143-848.

8 - Han, X. and Boyden, E. S. (2007) Multiple-color optical activation, silencing, and desynchronization of neural activity, with single-spike temporal resolution, PLoS ONE 2(3): p. e299.

7 - Zhang, F., Wang, L.-P., Boyden, E. S., Deisseroth, K. (2006) Optical control of excitable cells and Channelrhodopsin-2, Nature Methods 3(10):785-92.

6 - Boyden, E. S., Katoh, A., Pyle, J. L., Chatila, T. A., Tsien, R. W., Raymond, J. L. (2006) Selective engagement of plasticity mechanisms for motor memory storage, Neuron 51(6):823-834.

5 - Boyden, E. S., Zhang, F., Bamberg, E., Nagel, G., Deisseroth, K. (2005) Millisecond-timescale, genetically-targeted optical control of neural activity, Nature Neuroscience 8(9):1263-1268.

4 - Kimpo, R. R.*, Boyden, E. S.*, Katoh, A., Ke, M. C., Raymond, J. L. (2005) Distinct patterns of stimulus generalization of increases and decreases in VOR gain, Journal of Neurophysiology 94(5):3092-3100. (* co-first authors)

3 - Boyden, E. S.*, Katoh, A.*, Raymond, J. L. (2004) Cerebellum-dependent learning: The role of multiple plasticity mechanisms, Annual Review of Neuroscience 27:581-609. (* co-first authors)

2 - Boyden, E. S., Raymond, J. L. (2003) Active reversal of motor memories reveals rules governing memory encoding, Neuron 39(6):1031-42.

1 - Maguire, Y., Boyden, E. S., Gershenfeld, N. (2000) Toward a table-top quantum computer, IBM Systems Journal 39:3&4, p.823.

Conference Papers and Talks (Refereed)

Online Video Presentations

26 - MIT McGovern Institute/Georgia Tech Video (2012) A Robot for Analyzing Single Cells in the Living Brain. Online.

25 - Boyden, E. S. (2012) Adapting Tools From Nature To Engineer The Brain, Media Lab Inside/Out Symposium, MIT, Cambridge, MA.

24 - Boyden, E. S. (2012) Optogenetics and Other Tools For Analyzing and Engineering Neural Circuits, Case Western Reserve University, Cleveland, OH.

23 - Boyden, E. S. (2012) Optogenetics. Optogenetics in neurons and beyond, Cell Press Webinar, March 15, 2012, Online.

22 - Boyden, E. S. (2012) Optogenetics, Robotic Neurophysiology, and Other Neural Circuit Analysis Tools, USC, Los Angeles, CA.

21 - Boyden, E. S. (2012) Optogenetics, Robotic Electrophysiology, and Other Neural Circuit Tools, Brainmap Seminar, MGH Charlestown.

20 - Boyden, E. S. (2011) Enhancing the Brain - Past, Present and Future, Honors Colloquium, University of Rhode Island.

19 - Boyden, E. S. (2011) Engineering the Mind, Ar Seminar Series for the Public, Inaugural Lecture, Champalimaud Institute for the Unknown, Lisbon, Portugal.

18 - Boyden, E.S. (2011) Neural Networks for Solving Neural Networks, Networks Solving Networks Meeting, MIT Media Lab, Cambridge, MA.

17 - Boyden, E. S. (2011) Controlling brain circuits with light: Towards systematic analysis of neural circuit functions. Symposium on the Emerging Genetics and Neurobiology of Severe Mental Illness, Broad Institute, Cambridge, MA.

16 - Boyden, E. S. (2011) Technologies for the Systematic Analysis of How Brain Circuits Perform Computations, Keynote, 4th Conference on Artificial General Intelligence, Google, Mountain View, CA.

15 - MIT McGovern Institute Video (2011) Optogenetics: Controlling the brain with light. Online.

14 - Boyden, E. S. (2011) A light switch for neurons. TED, Long Beach, CA.

13 - Interview. (2011) Ed Boyden: SPIE Newsroom Interview, San Francisco, CA.

12 - MIT McGovern Institute Video (2011) Blind Mice, No Longer: Video Press Release for Doroudchi et al., 2011.

11 - Boyden, E. S. (2011) Controlling the Brain With Light, SPIE, Hot Topics Session, San Francisco, CA.

10 - Boyden, E. S. (2010) Controlling Brain Computations: Towards New Brain Insights and Brain Therapies, Allen Institute for Brain Science Symposium, Open Questions in Neuroscience, Seattle, WA.

9 - Boyden, E. S. (2010) Controlling Brain Circuits With Light, EmTech@MIT, Cambridge, MA.

8 - Boyden, E. S. (2010) Enabling Systematic Neuroscience with Novel Optical Neural Control Strategies, INCF Neuroinformatics Congress, Kobe, Japan.

7 - Interview. (2010) Ed Boyden: National Science Foundation interview. Online.

6 - McGovern Institute, MIT. (2010) Welcome to the McGovern Institute. Online.

5 - Boyden, E. S. (2009) Synthetic Neurobiology: Optically Engineering the Brain to Augment Its Function, Singularity Summit, New York City, NY.

4 - Boyden, E. S. (2009) Optical Neural Control Prosthetics, Invited speaker, No Barriers Festival, Miami, FL.

3 - Boyden, E. S. (2009) Optical Control Of Normal and Pathological Neural Circuit Computations, Invited speaker, McGovern Symposium, Tsinghua University, Beijing, China.

2 - Boyden, E. S. (2009) Optical Brain Control: Analyzing and Engineering Normal and Pathological Neural Circuit Dynamics, Invited speaker, CIMIT Forum, Boston, MA.

1 - Boyden, E. S. (2007) Engineering the Brain: Towards Systematic Cures for Neural Disorders, Featured speaker, MIT Media Lab H2.0 (Human 2.0) Symposium, MIT, Cambridge, MA.

Invited Talks

Conference Papers and Talks (Non-Refereed)

Book Chapters

Books

Byline Articles

18 - Boyden, E. S. (2011) Optogenetics: Using Light to Control the Brain, Cerebrum, The Dana Foundation, November 2011.

17 - Boyden, E. S. (2011) The Birth of Optogenetics, The Scientist, July 2011 Issue. (Cover Story.)

16 - Boyden, E. S. (2010) "Molecular Tools for Controlling Brain Circuits with Light," Eppendorf and Science Prize for Neurobiology Competition Essay, Science Magazine.

15 - Boyden, E. S., Allen, B. D., Fritz, D. (2010) "Brain Coprocessors." Column, Technology Review. 9/23/2010.

14 - Boyden, E. S. (2010) Controlling the Brain with Light. SPIE Newsroom. 6/10/2010.

13 - Boyden, E. S. and Chow, B. Y. (2010) "Defining An Algorithm For Inventing From Nature." Column, Technology Review. 1/19/2010.

12 - Boyden, E. S. (2009) “The Singularity and the Fixed Point.” Column, Technology Review. 9/4/2009. (http://www.technologyreview.com/biomedicine/23354/).

11 - Boyden, E. S. (2009) "Civilization as Experiment." Ed Boyden's Blog. Technology Review. 1/19/09. (http://www.technologyreview.com/blog/boyden/22512/).

10 - Boyden, E. S. (2008) "Averting Disasters, Preventing Problems." Ed Boyden's Blog. Technology Review. 9/2/08. (http://www.technologyreview.com/blog/boyden/22122/).

9 - Boyden, E. S. (2008) "Research as a Community-Building Activity." Ed Boyden's Blog. Technology Review. 7/28/08. (http://www.technologyreview.com/blog/boyden/22102/).

8 - Boyden, E. S. (2008) "Inverting the Core." Ed Boyden's Blog. Technology Review. 7/14/08. (http://www.technologyreview.com/blog/boyden/22096/).

7 - Boyden, E. S. (2008) "Training a Generation of Neuroengineers." Ed Boyden's Blog, Technology Review. 4/22/08. (http://www.technologyreview.com/blog/boyden/22055/).

6 - Boyden, E. S. (2007) "How to Think." Ed Boyden's Blog. Technology Review. 11/13/07. (http://www.technologyreview.com/blog/boyden/21925/).

5 - Boyden, E. S. (2007) "Synthetic Neurobiology." Ed Boyden's Blog. Technology Review. 10/9/07. (http://www.technologyreview.com/blog/boyden/21871/).

4 - Boyden, E. S. (2007) "Open Philanthropy." Ed Boyden's Blog. Technology Review. 9/24/07. (http://www.technologyreview.com/blog/boyden/21850/).

3 - Boyden, E. S. (2007) "In Pursuit of Human Augmentation." Ed Boyden's Blog. Technology Review. 9/17/07. (http://www.technologyreview.com/blog/boyden/21839/).

2 - Boyden, E. S. (2007) “Engineering the Brain (‘Notebooks’ column),” Technology Review, March/April 2007 issue, p. 34-35.

1 - Boyden, E. S. (2000) Computational and Theoretical Neuroscience: From Synapse to Circuitry. National Institutes of Health/National Institute of Neurological Disorders and Stroke, Technical Report for Workshop of April 28, 2000.

Synthetic Neurobiology Memos

Patents and Pending Patents (Published Only)

GENBANK Contributions, Nucleotide